phnF:Gene Product(s)

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Nomenclature Function Interactions Localization Sequence Domains Structure Resources Accessions Links References Suggestions

Nomenclature

See Help:Product_nomenclature for help entering or editing information in this section of EcoliWiki.

Standard name

PhnF

Synonyms

predicted DNA-binding transcriptional regulator of phosphonate uptake and biodegradation[1], B4102[2][1], PhnF[2][1] , ECK4095, JW4063, b4102

Product description

PhnF transcriptional regulator[2][3]

Phosphonate utilization, probable regulatory gene[4]

EC number (for enzymes)


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Notes

Function

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<protect> Gene Ontology
See Help:Gene_ontology for help entering or editing GO terms and GO annotations in EcoliWiki.

Qualifier GO ID GO term name Reference Evidence Code with/from Aspect Notes Status
GO:0003677

DNA binding

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011663

F

Seeded from EcoCyc (v14.0)

complete

GO:0003677

DNA binding

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0238

F

Seeded from EcoCyc (v14.0)

complete

GO:0003700

transcription factor activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000524

F

Seeded from EcoCyc (v14.0)

complete

GO:0003700

transcription factor activity

PMID:11756427[5]

ISS: Inferred from Sequence or Structural Similarity

UniProtKB:P13669
UniProtKB:P22773
UniProtKB:P22405
UniProtKB:Q07191
UniProtKB:P96061
UniProtKB:Q9F2T4
UniProtKB:Q9X8E2
UniProtKB:Q9K492
UniProtKB:Q54677
UniProtKB:P39796
UniProtKB:Q9ACN8
UniProtKB:O34817

F

Seeded from EcoCyc (v14.0)

complete

GO:0005622

intracellular

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000524

C

Seeded from EcoCyc (v14.0)

complete

GO:0006350

transcription

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0804

P

Seeded from EcoCyc (v14.0)

complete

GO:0006355

regulation of transcription, DNA-dependent

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR000524

P

Seeded from EcoCyc (v14.0)

complete

GO:0006355

regulation of transcription, DNA-dependent

PMID:11756427[5]

ISS: Inferred from Sequence or Structural Similarity

UniProtKB:P13669
UniProtKB:P22773
UniProtKB:P22405
UniProtKB:Q07191
UniProtKB:P96061
UniProtKB:Q9F2T4
UniProtKB:Q9X8E2
UniProtKB:Q9K492
UniProtKB:Q54677
UniProtKB:P39796
UniProtKB:Q9ACN8
UniProtKB:O34817

P

Seeded from EcoCyc (v14.0)

complete

GO:0015716

phosphonate transport

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0019

P

Seeded from EcoCyc (v14.0)

complete

GO:0030528

transcription regulator activity

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011663

F

Seeded from EcoCyc (v14.0)

complete

GO:0030528

transcription regulator activity

PMID:11756427[5]

ISS: Inferred from Sequence or Structural Similarity

UniProtKB:P13669
UniProtKB:P22773
UniProtKB:P22405
UniProtKB:Q07191
UniProtKB:P96061
UniProtKB:Q9F2T4
UniProtKB:Q9X8E2
UniProtKB:Q9K492
UniProtKB:Q54677
UniProtKB:P39796
UniProtKB:Q9ACN8
UniProtKB:O34817

F

Seeded from EcoCyc (v14.0)

complete

GO:0045449

regulation of transcription

GOA:interpro
GO_REF:0000002

IEA: Inferred from Electronic Annotation

InterPro:IPR011663

P

Seeded from EcoCyc (v14.0)

complete

GO:0045449

regulation of transcription

GOA:spkw
SP_KW:GO_REF:0000004

IEA: Inferred from Electronic Annotation

SP_KW:KW-0805

P

Seeded from EcoCyc (v14.0)

complete

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Interactions See Help:Product_interactions for help entering or editing information about gene product interactions in this section of EcoliWiki.

Partner Type Partner Notes References Evidence
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Notes

Localization

See Help:Product_localization for how to add or edit information in this section of EcoliWiki.

Compartment Description Evidence Reference/Source Notes
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Notes

Structure and Physical Properties

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<protect> Physical Properties See Help:Product_physical_properties for help entering or editing information about the physical properties of this gene product.

Name
Sequence

at EcoCyc 

MHLSTHPTSY PTRYQEIAAK LEQELRQHYR CGDYLPAEQQ LAARFEVNRH TLRRAIDQLV
EKGWVQRRQG VGVLVLMRPF DYPLNAQARF SQNLLDQGSH PTSEKLLSVL RPASGHVADA
LGITEGENVI HLRTLRRVNG VALCLIDHYF ADLTLWPTLQ RFDSGSLHDF LREQTGIALR
RSQTRISARR AQAKECQRLE IPNMSPLLCV RTLNHRDGES SPAEYSVSLT RADMIEFTME H
Length

241

Mol. Wt

27.621 kDa

pI

8.6 (calculated)

Extinction coefficient

21,430 - 21,930 (calc based on 7 Y, 2 W, and 4 C residues)

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Domains/Motifs/Modification Sites

See Help:Product_domains_motifs for help entering or editing information in this section of EcoliWiki.

Type Residues Description Notes References

Domain

13..75

PF00392 Bacterial regulatory proteins, gntR family

PMID:19920124[6]

Domain

96..236

PF07702 UTRA domain

PMID:19920124[6]

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Structure
See Help:Product_structure for help entering or editing information in this section of EcoliWiki.

Structures

<beststructure> gene=phnF taxon=562,83333 </beststructure>

Models

View models at:

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Structure figures

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Notes

Gene Product Resources

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See Help:Product_resources for help with entering or editing information in this section of EcoliWiki.

Resource type Source Notes/Reference
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Notes

Accessions in Other Databases

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See Help:Gene_accessions for help with entering information into the Gene Accessions table.

Database Accession Notes

NCBI (Protein) (EcoliWiki Page)

GI:16131928

Escherichia coli str. K-12 substr. MG1655

NCBI (Protein) (EcoliWiki Page)

GeneID:948617

Escherichia coli str. K-12 substr. MG1655

ASAP

ASAP:ABE-0013435

Escherichia coli str. K-12 substr. MG1655

UniProt (EcoliWiki Page)

UniProtKB/Swiss-Prot:P16684

Escherichia coli str. K-12 substr. MG1655

EcoCyc

EcoCyc:EG10715

Escherichia coli str. K-12 substr. MG1655

EcoGene

EcoGene:EG10715

Escherichia coli str. K-12 substr. MG1655

NCBI (Gene) (EcoliWiki Page)

GeneID:948617

Escherichia coli str. K-12 substr. MG1655

RegulonDB

RegulonDB:ECK120000707

Escherichia coli str. K-12 substr. MG1655

EchoBASE

EchoBASE:EB0709

Escherichia coli str. K-12 substr. MG1655

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Notes

Links

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References

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See Help:References for how to manage references in EcoliWiki.

  1. ↑ 1.0 1.1 1.2 Riley, M. et al. (2006) Nucleic Acids Res 34:1-6 (corrected supplemental data from B. Wanner)
  2. ↑ 2.0 2.1 2.2 EcoCyc (release 10.6; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  3. ↑ EcoCyc (release 11.1; 2007) Keseler, IM et al. (2005) Nucleic Acids Res. 33(Database issue):D334-7
  4. ↑ EcoGene: Rudd, KE (2000) EcoGene: a genome sequence database for Escherichia coli K-12. Nucleic Acids Res 28:60-4.
  5. ↑ 5.0 5.1 5.2 Rigali, S et al. (2002) Subdivision of the helix-turn-helix GntR family of bacterial regulators in the FadR, HutC, MocR, and YtrA subfamilies. J. Biol. Chem. 277 12507-15 PubMed
  6. ↑ 6.0 6.1 Finn, RD et al. (2010) The Pfam protein families database. Nucleic Acids Res. 38 D211-22 PubMed

Categories

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